Literature DB >> 31199919

Pathology Image Analysis Using Segmentation Deep Learning Algorithms.

Shidan Wang1, Donghan M Yang1, Ruichen Rong1, Xiaowei Zhan2, Guanghua Xiao3.   

Abstract

With the rapid development of image scanning techniques and visualization software, whole slide imaging (WSI) is becoming a routine diagnostic method. Accelerating clinical diagnosis from pathology images and automating image analysis efficiently and accurately remain significant challenges. Recently, deep learning algorithms have shown great promise in pathology image analysis, such as in tumor region identification, metastasis detection, and patient prognosis. Many machine learning algorithms, including convolutional neural networks, have been proposed to automatically segment pathology images. Among these algorithms, segmentation deep learning algorithms such as fully convolutional networks stand out for their accuracy, computational efficiency, and generalizability. Thus, deep learning-based pathology image segmentation has become an important tool in WSI analysis. In this review, the pathology image segmentation process using deep learning algorithms is described in detail. The goals are to provide quick guidance for implementing deep learning into pathology image analysis and to provide some potential ways of further improving segmentation performance. Although there have been previous reviews on using machine learning methods in digital pathology image analysis, this is the first in-depth review of the applications of deep learning algorithms for segmentation in WSI analysis.
Copyright © 2019 American Society for Investigative Pathology. Published by Elsevier Inc. All rights reserved.

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Year:  2019        PMID: 31199919      PMCID: PMC6723214          DOI: 10.1016/j.ajpath.2019.05.007

Source DB:  PubMed          Journal:  Am J Pathol        ISSN: 0002-9440            Impact factor:   4.307


  21 in total

Review 1.  Digital pathology: exploring its applications in diagnostic surgical pathology practice.

Authors:  Ana Richelia Jara-Lazaro; Thomas Paulraj Thamboo; Ming Teh; Puay Hoon Tan
Journal:  Pathology       Date:  2010       Impact factor: 5.306

Review 2.  Whole-slide imaging and automated image analysis: considerations and opportunities in the practice of pathology.

Authors:  J D Webster; R W Dunstan
Journal:  Vet Pathol       Date:  2013-10-03       Impact factor: 2.221

Review 3.  Deep learning.

Authors:  Yann LeCun; Yoshua Bengio; Geoffrey Hinton
Journal:  Nature       Date:  2015-05-28       Impact factor: 49.962

4.  SegNet: A Deep Convolutional Encoder-Decoder Architecture for Image Segmentation.

Authors:  Vijay Badrinarayanan; Alex Kendall; Roberto Cipolla
Journal:  IEEE Trans Pattern Anal Mach Intell       Date:  2017-01-02       Impact factor: 6.226

5.  Partitioning histopathological images: an integrated framework for supervised color-texture segmentation and cell splitting.

Authors:  Hui Kong; Metin Gurcan; Kamel Belkacem-Boussaid
Journal:  IEEE Trans Med Imaging       Date:  2011-04-11       Impact factor: 10.048

6.  Fully Convolutional Networks for Semantic Segmentation.

Authors:  Evan Shelhamer; Jonathan Long; Trevor Darrell
Journal:  IEEE Trans Pattern Anal Mach Intell       Date:  2016-05-24       Impact factor: 6.226

7.  Microvascular density as an independent predictor of clinical outcome in renal cell carcinoma: an automated image analysis study.

Authors:  Vladimir V Iakovlev; Manal Gabril; William Dubinski; Andreas Scorilas; Youssef M Youssef; Hala Faragalla; Kalman Kovacs; Fabio Rotondo; Shereen Metias; Androu Arsanious; Anna Plotkin; Andrew H F Girgis; Catherine J Streutker; George M Yousef
Journal:  Lab Invest       Date:  2011-10-31       Impact factor: 5.662

Review 8.  2004 WHO classification of the renal tumors of the adults.

Authors:  Antonio Lopez-Beltran; Marina Scarpelli; Rodolfo Montironi; Ziya Kirkali
Journal:  Eur Urol       Date:  2006-01-17       Impact factor: 20.096

9.  Evaluation of HPV infection and smoking status impacts on cell proliferation in epithelial layers of cervical neoplasia.

Authors:  Martial Guillaud; Timon P H Buys; Anita Carraro; Jagoda Korbelik; Michele Follen; Michael Scheurer; Karen Adler Storthz; Dirk van Niekerk; Calum E MacAulay
Journal:  PLoS One       Date:  2014-09-11       Impact factor: 3.240

10.  Deep learning for digital pathology image analysis: A comprehensive tutorial with selected use cases.

Authors:  Andrew Janowczyk; Anant Madabhushi
Journal:  J Pathol Inform       Date:  2016-07-26
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  48 in total

1.  Computational Staining of Pathology Images to Study the Tumor Microenvironment in Lung Cancer.

Authors:  Shidan Wang; Ruichen Rong; Donghan M Yang; Junya Fujimoto; Shirley Yan; Ling Cai; Lin Yang; Danni Luo; Carmen Behrens; Edwin R Parra; Bo Yao; Lin Xu; Tao Wang; Xiaowei Zhan; Ignacio I Wistuba; John Minna; Yang Xie; Guanghua Xiao
Journal:  Cancer Res       Date:  2020-01-08       Impact factor: 12.701

Review 2.  The use of deep learning technology for the detection of optic neuropathy.

Authors:  Mei Li; Chao Wan
Journal:  Quant Imaging Med Surg       Date:  2022-03

3.  Ability to Predict Melanoma Within 5 Years Using Registry Data and a Convolutional Neural Network: A Proof of Concept Study.

Authors:  Martin Gillstedt; Sam Polesie
Journal:  Acta Derm Venereol       Date:  2022-07-13       Impact factor: 3.875

4.  A Matched-Pair Analysis of Nuclear Morphologic Features Between Core Needle Biopsy and Surgical Specimen in Thyroid Tumors Using a Deep Learning Model.

Authors:  Faridul Haq; Andrey Bychkov; Chan Kwon Jung
Journal:  Endocr Pathol       Date:  2022-10-14       Impact factor: 4.056

5.  Effect Evaluation of Perioperative Fast-Track Surgery Nursing for Tibial Fracture Patients with Computerized Tomography Images under Intelligent Algorithm.

Authors:  Mengmeng Zhang; Chuanbo Li; Fulan Rao
Journal:  Contrast Media Mol Imaging       Date:  2022-06-24       Impact factor: 3.009

Review 6.  Development and applications of computer image analysis algorithms for scoring of PD-L1 immunohistochemistry.

Authors:  L J Inge; E Dennis
Journal:  Immunooncol Technol       Date:  2020-05-11

Review 7.  The Use of Quantitative Digital Pathology to Measure Proteoglycan and Glycosaminoglycan Expression and Accumulation in Healthy and Diseased Tissues.

Authors:  A Sally Davis; Mary Y Chang; Jourdan E Brune; Teal S Hallstrand; Brian Johnson; Sarah Lindhartsen; Stephen M Hewitt; Charles W Frevert
Journal:  J Histochem Cytochem       Date:  2020-09-16       Impact factor: 2.479

8.  Differentiation of benign and malignant regions in paraffin embedded tissue blocks of pulmonary adenocarcinoma using micro CT scanning of paraffin tissue blocks: a pilot study for method validation.

Authors:  Ayten Kayı Cangır; Serpil Dizbay Sak; Gökalp Güneş; Kaan Orhan
Journal:  Surg Today       Date:  2021-03-01       Impact factor: 2.549

9.  Deep learning segmentation of glomeruli on kidney donor frozen sections.

Authors:  Xiang Li; Richard C Davis; Yuemei Xu; Zehan Wang; Nao Souma; Gina Sotolongo; Jonathan Bell; Matthew Ellis; David Howell; Xiling Shen; Kyle J Lafata; Laura Barisoni
Journal:  J Med Imaging (Bellingham)       Date:  2021-12-20

10.  Boosted EfficientNet: Detection of Lymph Node Metastases in Breast Cancer Using Convolutional Neural Networks.

Authors:  Jun Wang; Qianying Liu; Haotian Xie; Zhaogang Yang; Hefeng Zhou
Journal:  Cancers (Basel)       Date:  2021-02-07       Impact factor: 6.639

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